[petsc-users] pc_gamg_type geo broken in 3.3?
Mark F. Adams
mark.adams at columbia.edu
Wed Jul 25 08:56:32 CDT 2012
Humm, I did check petsc-3.3 before it was released and petsc-dev works.
Could you attache the debugger and get a line number?
Mark
On Jul 24, 2012, at 10:59 PM, Blaise Bourdin wrote:
> Hi,
>
> is pc_gamg_type geo broken in petsc-3.3? I get the following when I make runex54 in src/ksp/ksp/examples/tutorials:
>
> iMac:tutorials blaise$ make runex54
> 1,28c1,128
> < 0 KSP Residual norm 132.598
> < 1 KSP Residual norm 39.159
> < 2 KSP Residual norm 15.7856
> < 3 KSP Residual norm 8.91321
> < 4 KSP Residual norm 6.95961
> < 5 KSP Residual norm 15.1387
> < 6 KSP Residual norm 12.5547
> < 7 KSP Residual norm 3.78056
> < 8 KSP Residual norm 2.38412
> < 9 KSP Residual norm 3.91952
> < 10 KSP Residual norm 1.3192
> < 11 KSP Residual norm 1.70681
> < 12 KSP Residual norm 1.74052
> < 13 KSP Residual norm 0.482779
> < 14 KSP Residual norm 0.634571
> < 15 KSP Residual norm 0.264686
> < 16 KSP Residual norm 0.240607
> < 17 KSP Residual norm 0.10998
> < 18 KSP Residual norm 0.0853072
> < 19 KSP Residual norm 0.0551939
> < 20 KSP Residual norm 0.0231032
> < 21 KSP Residual norm 0.0286234
> < 22 KSP Residual norm 0.0110345
> < 23 KSP Residual norm 0.00582651
> < 24 KSP Residual norm 0.00256534
> < 25 KSP Residual norm 0.00176112
> < 26 KSP Residual norm 0.000730267
> < Linear solve converged due to CONVERGED_RTOL iterations 26
> ---
>> [2]PETSC ERROR: ------------------------------------------------------------------------
>> [2]PETSC ERROR: Caught signal number 11 SEGV: Segmentation Violation, probably memory access out of range
>> [2]PETSC ERROR: [0]PETSC ERROR: ------------------------------------------------------------------------
>> [0]PETSC ERROR: Caught signal number 11 SEGV: Segmentation Violation, probably memory access out of range
>> [0]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger
>> [0]PETSC ERROR: or see http://www.mcs.anl.gov/petsc/documentation/faq.html#valgrind[0]PETSC ERROR: or try http://valgrind.org on GNU/linux and Apple Mac OS X to find memory corruption errors
>> [0]PETSC ERROR: [1]PETSC ERROR: ------------------------------------------------------------------------
>> [1]PETSC ERROR: Caught signal number 11 SEGV: Segmentation Violation, probably memory access out of range
>> [1]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger
>> [1]PETSC ERROR: or see http://www.mcs.anl.gov/petsc/documentation/faq.html#valgrind[1]PETSC ERROR: or try http://valgrind.org on GNU/linux and Apple Mac OS X to find memory corruption errors
>> [1]PETSC ERROR: likely location of problem given in stack below
>> [1]PETSC ERROR: --------------------- Stack Frames ------------------------------------
>> [1]PETSC ERROR: Note: The EXACT line numbers in the stack are not available,
>> [1]PETSC ERROR: INSTEAD the line number of the start of the function
>> [1]PETSC ERROR: is given.
>> [1]PETSC ERROR: [1] triangulateAndFormProl line 180 /opt/HPC/petsc-3.3/src/ksp/pc/impls/gamg/geo.c
>> [1]PETSC ERROR: [1] PCGAMGProlongator_GEO line 756 /opt/HPC/petsc-3.3/src/ksp/pc/impls/gamg/geo.c
>> [1]PETSC ERROR: [1] PCSetUp_GTry option -start_in_debugger or -on_error_attach_debugger
>> [2]PETSC ERROR: or see http://www.mcs.anl.gov/petsc/documentation/faq.html#valgrind[2]PETSC ERROR: or try http://valgrind.org on GNU/linux and Apple Mac OS X to find memory corruption errors
>> [2]PETSC ERROR: likely location of problem given in stack below
>> [2]PETSC ERROR: --------------------- Stack Frames ------------------------------------
>> [2]PETSC ERROR: Note: The EXACT line numbers in the stack are not available,
>> [2]PETSC ERROR: INSTEAD the line number of the start of the function
>> [2]PETSC ERROR: is given.
>> [2]PETSC ERROR: [2] triangulateAndFormProl line 180 /opt/HPC/petsc-3.3/src/ksp/pc/impls/gamg/geo.c
>> [2]PETSC ERROR: [2] PCGAMGProlongator_GEO line 756 /opt/HPC/petsc-3.3/src/ksp/pc/impls/gamg/geo.c
>> [2]PETSC ERROR: [2] PCSetUp_GAMG line 560 /opt/HPC/petsc-3.3/src/ksp/pc/impls/gamg/gamg.c
>> [2]PETSC ERROR: [2] PCSetUp line 810 /opt/HPC/petsc-3.3/src/ksp/pc/interface/precon.c
>> [2]PETSC ERROR: [2] KSPSetUp line 182 /opt/HPC/petsc-3.3/src/ksp[3]PETSC ERROR: ------------------------------------------------------------------------
>> [3]PETSC ERROR: Caught signal number 11 SEGV: Segmentation Violation, probably memory access out of range
>> [3]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger
>> [3]PETSC ERROR: or see http://www.mcs.anl.gov/petsc/documentation/faq.html#valgrind[3]PETSC ERROR: or try http://valgrind.org on GNU/linux and Apple Mac OS X to find memory corruption errors
>> [3]PETSC ERROR: likely location of problem given in stack below
>> [3]PETSC ERROR: --------------------- Stack Frames ------------------------------------
>> [3]PETSC ERROR: Note: The EXACT line numbers in the stack are not available,
>> [3]PETSC ERROR: INSTEAD the line number of the start of the function
>> [3]PETSC ERROR: is given.
>> [3]PETSC ERROR: [3] triangulateAndFormProl line 180 /opt/HPC/petsc-3.3/src/ksp/pc/impls/gamg/geo.c
>> [3]PETSC ERROR: [3] PCGAMGProlongator_GEO line 756 /opt/HPC/petsc-3.3/src/ksp/pc/impls/gamg/geo.c
>> [3]PETSC ERROR: [3] PCSetUp_Glikely location of problem given in stack below
>> [0]PETSC ERROR: --------------------- Stack Frames ------------------------------------
>> [0]PETSC ERROR: Note: The EXACT line numbers in the stack are not available,
>> [0]PETSC ERROR: INSTEAD the line number of the start of the function
>> [0]PETSC ERROR: is given.
>> [0]PETSC ERROR: [0] triangulateAndFormProl line 180 /opt/HPC/petsc-3.3/src/ksp/pc/impls/gamg/geo.c
>> [0]PETSC ERROR: [0] PCGAMGProlongator_GEO line 756 /opt/HPC/petsc-3.3/src/ksp/pc/impls/gamg/geo.c
>> [0]PETSC ERROR: [0] PCSetUp_GAMG line 560 /opt/HPC/petsc-3.3/src/ksp/pc/impls/gamg/gamg.c
>> [0]PETSC ERROR: [0] PCSetUp line 810 /opt/HPC/petsc-3.3/src/ksp/pc/interface/precon.c
>> [0]PETSC ERROR: [0] KSPSetUp line 182 /opt/HPC/petsc-3.3/src/ksp/ksp/interface/itfunc.c
>> [0]PETSC ERROR: [0] KSPSolve line 351 /opt/HPC/petsc-3.3/src/ksp/ksp/interface/itfunc.c
>> [0]PETSC ERROR: --------------------- Error Message ------------------------------------
>> [0]PETSC ERROR: Signal received!
>> [0]PETSC ERROR: ----------------AMG line 560 /opt/HPC/petsc-3.3/src/ksp/pc/impls/gamg/gamg.c
>> [1]PETSC ERROR: [1] PCSetUp line 810 /opt/HPC/petsc-3.3/src/ksp/pc/interface/precon.c
>> [1]PETSC ERROR: [1] KSPSetUp line 182 /opt/HPC/petsc-3.3/src/ksp/ksp/interface/itfunc.c
>> [1]PETSC ERROR: [1] KSPSolve line 351 /opt/HPC/petsc-3.3/src/ksp/ksp/interface/itfunc.c
>> [1]PETSC ERROR: --------------------- Error Message ------------------------------------
>> [1]PETSC ERROR: Signal received!
>> [1]PETSC ERROR: ------------------------------------------------------------------------
>> [1]PETSC ERROR: Petsc Release Version 3.3.0, Patch 2, unknown
>> [1]PETSC ERROR: See docs/changes/index.html for recent updates.
>> [1]PETSC ERROR: See docs/faq.html for hints about trouble shooting.
>> [1]PETSC ERROR: See docs/index.html for manual pages.
>> [1]PETSC ERROR: ------------------------------------------------------------------------
>> [1]PETSC ERROR: ./ex54 on a Darwin-in named iMac.local by blaise Tue Jul 24 21:51:38 2012
>> [1]PETSC ERROR: Libraries linked from /opt/HPC/petsc-3.3/Darwi/ksp/interface/itfunc.c
>> [2]PETSC ERROR: [2] KSPSolve line 351 /opt/HPC/petsc-3.3/src/ksp/ksp/interface/itfunc.c
>> [2]PETSC ERROR: --------------------- Error Message ------------------------------------
>> [2]PETSC ERROR: Signal received!
>> [2]PETSC ERROR: ------------------------------------------------------------------------
>> [2]PETSC ERROR: Petsc Release Version 3.3.0, Patch 2, unknown
>> [2]PETSC ERROR: See docs/changes/index.html for recent updates.
>> [2]PETSC ERROR: See docs/faq.html for hints about trouble shooting.
>> [2]PETSC ERROR: See docs/index.html for manual pages.
>> [2]PETSC ERROR: ------------------------------------------------------------------------
>> [2]PETSC ERROR: ./ex54 on a Darwin-in named iMac.local by blaise Tue Jul 24 21:51:38 2012
>> [2]PETSC ERROR: Libraries linked from /opt/HPC/petsc-3.3/Darwin-intel11.1-g/lib
>> [2]PETSC ERROR: Configure run at Mon Jul 23 20:49:44 2012
>> [2]PETSC ERROR: Configure options --download-hdf5=1 --download-metis=1 --download-parmetis=1 --download-sowing=1 --download-triangle=1 AMG line 560 /opt/HPC/petsc-3.3/src/ksp/pc/impls/gamg/gamg.c
>> [3]PETSC ERROR: [3] PCSetUp line 810 /opt/HPC/petsc-3.3/src/ksp/pc/interface/precon.c
>> [3]PETSC ERROR: [3] KSPSetUp line 182 /opt/HPC/petsc-3.3/src/ksp/ksp/interface/itfunc.c
>> [3]PETSC ERROR: [3] KSPSolve line 351 /opt/HPC/petsc-3.3/src/ksp/ksp/interface/itfunc.c
>> [3]PETSC ERROR: --------------------- Error Message ------------------------------------
>> [3]PETSC ERROR: Signal received!
>> [3]PETSC ERROR: ------------------------------------------------------------------------
>> [3]PETSC ERROR: Petsc Release Version 3.3.0, Patch 2, unknown
>> [3]PETSC ERROR: See docs/changes/index.html for recent updates.
>> [3]PETSC ERROR: See docs/faq.html for hints about trouble shooting.
>> [3]PETSC ERROR: See docs/index.html for manual pages.
>> [3]PETSC ERROR: ------------------------------------------------------------------------
>> [3]PETSC ERROR: ./ex54 on a Darwin-in named iMac.local by blaise Tue Jul 24 21:51:38 2012
>> [3]PETSC ERROR: Libraries linked from /opt/HPC/petsc-3.3/Darwi--------------------------------------------------------
>> [0]PETSC ERROR: Petsc Release Version 3.3.0, Patch 2, unknown
>> [0]PETSC ERROR: See docs/changes/index.html for recent updates.
>> [0]PETSC ERROR: See docs/faq.html for hints about trouble shooting.
>> [0]PETSC ERROR: See docs/index.html for manual pages.
>> [0]PETSC ERROR: ------------------------------------------------------------------------
>> [0]PETSC ERROR: ./ex54 on a Darwin-in named iMac.local by blaise Tue Jul 24 21:51:38 2012
>> [0]PETSC ERROR: Libraries linked from /opt/HPC/petsc-3.3/Darwin-intel11.1-g/lib
>> [0]PETSC ERROR: Configure run at Mon Jul 23 20:49:44 2012
>> [0]PETSC ERROR: Configure options --download-hdf5=1 --download-metis=1 --download-parmetis=1 --download-sowing=1 --download-triangle=1 --download-yaml=1 --with-blas-lapack-dir=/opt/intel/Compiler/11.1/091/Frameworks/mkl --with-cmake=cmake --with-debugging=1 --with-mpi-dir=/opt/HPC/mpich2-1.4.1p1-intel11.1 --with-pic --with-shared-libraries=1 --with-vendor-compilers=intel --with-x11=1 CFLAGS= CXXFLAn-intel11.1-g/lib
>> [1]PETSC ERROR: Configure run at Mon Jul 23 20:49:44 2012
>> [1]PETSC ERROR: Configure options --download-hdf5=1 --download-metis=1 --download-parmetis=1 --download-sowing=1 --download-triangle=1 --download-yaml=1 --with-blas-lapack-dir=/opt/intel/Compiler/11.1/091/Frameworks/mkl --with-cmake=cmake --with-debugging=1 --with-mpi-dir=/opt/HPC/mpich2-1.4.1p1-intel11.1 --with-pic --with-shared-libraries=1 --with-vendor-compilers=intel --with-x11=1 CFLAGS= CXXFLAGS= PETSC_ARCH=Darwin-intel11.1-g
>> [1]PETSC ERROR: ------------------------------------------------------------------------
>> [1]PETSC ERROR: User provided function() line 0 in unknown directory unknown file
>> application called MPI_Abort(MPI_COMM_WORLD, 59) - process 1
>> [cli_1]: aborting job:
>> application called MPI_Abort(MPI_COMM_WORLD, 59) - process 1
>> --download-yaml=1 --with-blas-lapack-dir=/opt/intel/Compiler/11.1/091/Frameworks/mkl --with-cmake=cmake --with-debugging=1 --with-mpi-dir=/opt/HPC/mpich2-1.4.1p1-intel11.1 --with-pic --with-shared-libraries=1 --with-vendor-compilers=intel --with-x11=1 CFLAGS= CXXFLAGS= PETSC_ARCH=Darwin-intel11.1-g
>> [2]PETSC ERROR: ------------------------------------------------------------------------
>> [2]PETSC ERROR: User provided function() line 0 in unknown directory unknown file
>> application called MPI_Abort(MPI_COMM_WORLD, 59) - process 2
>> [cli_2]: aborting job:
>> application called MPI_Abort(MPI_COMM_WORLD, 59) - process 2
>> n-intel11.1-g/lib
>> [3]PETSC ERROR: Configure run at Mon Jul 23 20:49:44 2012
>> [3]PETSC ERROR: Configure options --download-hdf5=1 --download-metis=1 --download-parmetis=1 --download-sowing=1 --download-triangle=1 --download-yaml=1 --with-blas-lapack-dir=/opt/intel/Compiler/11.1/091/Frameworks/mkl --with-cmake=cmake --with-debugging=1 --with-mpi-dir=/opt/HPC/mpich2-1.4.1p1-intel11.1 --with-pic --with-shared-libraries=1 --with-vendor-compilers=intel --with-x11=1 CFLAGS= CXXFLAGS= PETSC_ARCH=Darwin-intel11.1-g
>> [3]PETSC ERROR: ------------------------------------------------------------------------
>> [3]PETSC ERROR: User provided function() line 0 in unknown directory unknown file
>> application called MPI_Abort(MPI_COMM_WORLD, 59) - process 3
>> [cli_3]: aborting job:
>> application called MPI_Abort(MPI_COMM_WORLD, 59) - process 3
>> GS= PETSC_ARCH=Darwin-intel11.1-g
>> [0]PETSC ERROR: ------------------------------------------------------------------------
>> [0]PETSC ERROR: User provided function() line 0 in unknown directory unknown file
>> application called MPI_Abort(MPI_COMM_WORLD, 59) - process 0
>> [cli_0]: aborting job:
>> application called MPI_Abort(MPI_COMM_WORLD, 59) - process 0
> /opt/HPC/petsc-3.3/src/ksp/ksp/examples/tutorials
> Possible problem with with ex54_0, diffs above
> =========================================
>
> Also, I though there was a suggestion for the default parameters for GAMG for symmetric elliptic problems in the documentation or the FAQ, but I can't find it. Any suggestion?
>
> Regards,
>
> Blaise
>
> --
> Department of Mathematics and Center for Computation & Technology
> Louisiana State University, Baton Rouge, LA 70803, USA
> Tel. +1 (225) 578 1612, Fax +1 (225) 578 4276 http://www.math.lsu.edu/~bourdin
>
>
>
>
>
>
>
> --
> Department of Mathematics and Center for Computation & Technology
> Louisiana State University, Baton Rouge, LA 70803, USA
> Tel. +1 (225) 578 1612, Fax +1 (225) 578 4276 http://www.math.lsu.edu/~bourdin
>
>
>
>
>
>
>
>
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